Gaussian blur sigma=2, convert to frequencies before pixel FlowSOM
Pixel hClusters found using z-score cap=3, k=20, and iterative thresh=2 (3 iterations)
Cell-based clustering using frequencing of 100 pixel FlowSOM clusters: normalize by size, k=20

1 Histogram of counts in pixel clusters

2 Heatmaps of pixel clusters x markers

3 Compare pixel clusering with cell clustering

4 Cell-based FlowSOM clustering using pixel clusters

4.1 Cell cluster x frequency of pixel clusters

4.2 Cell cluster x marker (not weighted, segmentation)

4.3 Cell cluster x marker (weighted by pixel cluster frequency)